Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

82

Sequences:

3342

Seq/Len:

40.76

HH_delta:

0.825 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

25_A

32_A

1.98489

4.579

38_S

68_E

1.16398

2.685

26_R

33_S

1.01103

2.332

22_S

33_S

0.98183

2.265

67_L

80_Y

0.96696

2.231

41_D

65_N

0.96525

2.227

22_S

37_L

0.94611

2.183

38_S

65_N

0.94396

2.178

29_P

32_A

0.76847

1.773

14_L

43_L

0.76409

1.763

45_Y

62_F

0.75815

1.749

45_Y

54_V

0.75256

1.736

35_M

72_I

0.75081

1.732

55_T

58_E

0.73615

1.698

25_A

29_P

0.70291

1.622

21_I

35_M

0.68541

1.581

28_D

31_K

0.65782

1.518

12_H

16_N

0.64367

1.485

57_E

61_E

0.63417

1.463

61_E

64_E

0.63116

1.456

64_E

68_E

0.61366

1.416

21_I

32_A

0.60232

1.389

28_D

32_A

0.57411

1.324

24_L

31_K

0.57407

1.324

25_A

36_I

0.56609

1.306

61_E

65_N

0.5641

1.301

14_L

39_L

0.55904

1.290

19_N

22_S

0.53012

1.223

19_N

23_W

0.50889

1.174

48_S

58_E

0.48595

1.121

24_L

35_M

0.48368

1.116

34_E

68_E

0.48274

1.114

15_F

19_N

0.47222

1.089

18_L

36_I

0.46513

1.073

19_N

40_S

0.45956

1.060

71_K

79_E

0.45547

1.051

17_T

69_I

0.45244

1.044

39_L

43_L

0.44782

1.033

58_E

61_E

0.4478

1.033

68_E

72_I

0.44274

1.021

68_E

71_K

0.43763

1.010

71_K

76_D

0.43312

0.999

67_L

78_L

0.43028

0.993

23_W

26_R

0.42654

0.984

42_L

62_F

0.41701

0.962

54_V

58_E

0.40747

0.940

3_K

6_Q

0.40568

0.936

31_K

34_E

0.40513

0.935

66_Y

70_Q

0.39752

0.917

34_E

38_S

0.39562

0.913

5_L

8_Q

0.39194

0.904

75_G

78_L

0.38017

0.877

71_K

78_L

0.36856

0.850

31_K

72_I

0.36819

0.849

15_F

44_R

0.36733

0.847

51_E

58_E

0.36192

0.835

74_F

77_R

0.36108

0.833

22_S

36_I

0.35775

0.825

71_K

80_Y

0.3569

0.823

57_E

81_E

0.3563

0.822

20_S

72_I

0.35212

0.812

22_S

26_R

0.34939

0.806

70_Q

73_R

0.34392

0.793

41_D

61_E

0.34285

0.791

64_E

71_K

0.34171

0.788

65_N

68_E

0.34081

0.786

60_L

64_E

0.34012

0.785

10_N

42_L

0.33522

0.773

20_S

24_L

0.33311

0.768

40_S

44_R

0.33141

0.765

15_F

47_L

0.3309

0.763

46_S

62_F

0.32336

0.746

21_I

36_I

0.32171

0.742

32_A

36_I

0.32167

0.742

23_W

27_I

0.31933

0.737

25_A

33_S

0.31904

0.736

13_F

42_L

0.31786

0.733

21_I

39_L

0.31188

0.719

20_S

70_Q

0.30863

0.712

42_L

70_Q

0.29951

0.691

48_S

51_E

0.29934

0.691

37_L

41_D

0.29523

0.681

70_Q

74_F

0.29487

0.680

24_L

29_P

0.29363

0.677

24_L

28_D

0.2895

0.668

27_I

75_G

0.28714

0.662

9_I

24_L

0.2841

0.655

23_W

40_S

0.28186

0.650

4_A

7_A

0.28142

0.649

43_L

46_S

0.27655

0.638

70_Q

78_L

0.27635

0.638

9_I

59_E

0.27463

0.634

24_L

72_I

0.27173

0.627

50_K

53_F

0.27087

0.625

7_A

10_N

0.26475

0.611

33_S

37_L

0.26305

0.607

17_T

35_M

0.26295

0.607

29_P

33_S

0.26068

0.601

15_F

36_I

0.25964

0.599

9_I

43_L

0.25835

0.596

42_L

46_S

0.25684

0.593

56_L

60_L

0.25123

0.580

18_L

43_L

0.251

0.579

14_L

17_T

0.25082

0.579

41_D

45_Y

0.24886

0.574

24_L

32_A

0.24733

0.571

66_Y

69_I

0.24332

0.561

26_R

30_E

0.2432

0.561

20_S

39_L

0.24269

0.560

13_F

16_N

0.24236

0.559

45_Y

65_N

0.24011

0.554

3_K

47_L

0.23991

0.553

74_F

78_L

0.23953

0.553

53_F

57_E

0.23788

0.549

6_Q

9_I

0.23619

0.545

8_Q

56_L

0.23522

0.543

4_A

42_L

0.23379

0.539

57_E

64_E

0.23163

0.534

52_E

55_T

0.23074

0.532

17_T

73_R

0.22988

0.530

21_I

40_S

0.22885

0.528

52_E

63_I

0.22861

0.527

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)